› 2c5c

X-ray diffraction
2.94Å resolution

Shiga-like toxin 1 B subunit complexed with a bivalent inhibitor

Released:
DOI: 10.2210/pdb2c5c/pdb
PDB entry 2c5c coloured by chain, front view.
PDB entry 2c5c coloured by chain, side view.
PDB entry 2c5c coloured by chain, top view.
Source organism: Phage h30
Entry authors: Dodd RB, Read RJ

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-159557 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (5 distinct):
Shiga-like toxin 1 subunit B Chains: A, B, C, D, E, F, G, H, I, J
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J
Length: 69 amino acids
Theoretical weight: 7.7 KDa
Source organism: Phage h30
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P69178 (Residues: 21-89; Coverage: 100%)
Gene name: stxB
Sequence domains: Shiga-like toxin beta subunit
Structure domains: OB fold (Dihydrolipoamide Acetyltransferase, E2P)

Ligands and Environments

Carbohydrate polymer : NEW Components: GLA, GLC, GAL
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GLA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GLA, GAL, BGC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GLA, BGC
Carbohydrate polymer
3 bound ligands:
Ligand S10 8 x S10
Ligand GLA 1 x GLA
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: R32
Unit cell:
a: 114.313Å b: 114.313Å c: 406.936Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.201 0.198 0.267
Expression system: Escherichia coli BL21(DE3)

Quick links